Human Gene DPPA4 (ENST00000335658.7_10) from GENCODE V47lift37
  Description: developmental pluripotency associated 4, transcript variant 1 (from RefSeq NM_018189.4)
Gencode Transcript: ENST00000335658.7_10
Gencode Gene: ENSG00000121570.13_13
Transcript (Including UTRs)
   Position: hg19 chr3:109,044,991-109,056,393 Size: 11,403 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr3:109,046,835-109,056,364 Size: 9,530 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:109,044,991-109,056,393)mRNA (may differ from genome)Protein (304 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: DPPA4_HUMAN
DESCRIPTION: RecName: Full=Developmental pluripotency-associated protein 4;
FUNCTION: May be involved in the maintenance of active epigenetic status of target genes (By similarity). May inhibit differentiation of embryonic cells into a primitive ectoderm lineage (By similarity).
SUBUNIT: Interacts with DPPA2 (By similarity).
INTERACTION: Q99961:SH3GL1; NbExp=3; IntAct=EBI-710457, EBI-697911;
SUBCELLULAR LOCATION: Nucleus (By similarity).
SEQUENCE CAUTION: Sequence=BAA91765.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAB14188.1; Type=Frameshift; Positions=148;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 2.56 RPKM in Testis
Total median expression: 4.32 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -4.5029-0.155 Picture PostScript Text
3' UTR -447.701844-0.243 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR025891 - Dppa2/4_C_dom
IPR025892 - Dppa2/4_central_dom

Pfam Domains:
PF14047 - Dppa2/4 conserved region
PF14049 - Dppa2/4 conserved region in higher vertebrates

ModBase Predicted Comparative 3D Structure on Q7L190
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007275 multicellular organism development
GO:0035019 somatic stem cell population maintenance

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AK001575 - Homo sapiens cDNA FLJ10713 fis, clone NT2RP3000980.
AK022698 - Homo sapiens cDNA FLJ12636 fis, clone NT2RM4001905.
BC032846 - Homo sapiens developmental pluripotency associated 4, mRNA (cDNA clone MGC:33013 IMAGE:5267235), complete cds.
AK298623 - Homo sapiens cDNA FLJ57556 complete cds, highly similar to Developmental pluripotency-associated protein 4.
AK290992 - Homo sapiens cDNA FLJ76275 complete cds, highly similar to Homo sapiens developmental pluripotency associated 4 (DPPA4), mRNA.
DQ891225 - Synthetic construct clone IMAGE:100003855; FLH170319.01X; RZPDo839E0298D developmental pluripotency associated 4 (DPPA4) gene, encodes complete protein.
KJ902790 - Synthetic construct Homo sapiens clone ccsbBroadEn_12184 DPPA4 gene, encodes complete protein.
DQ894410 - Synthetic construct Homo sapiens clone IMAGE:100008870; FLH170315.01L; RZPDo839E0297D developmental pluripotency associated 4 (DPPA4) gene, encodes complete protein.
AB528636 - Synthetic construct DNA, clone: pF1KB6396, Homo sapiens DPPA4 gene for developmental pluripotency associated 4, without stop codon, in Flexi system.
AK299290 - Homo sapiens cDNA FLJ57833 complete cds, highly similar to Developmental pluripotency-associated protein 4.
JD291329 - Sequence 272353 from Patent EP1572962.
JD491718 - Sequence 472742 from Patent EP1572962.
JD164650 - Sequence 145674 from Patent EP1572962.
JD522021 - Sequence 503045 from Patent EP1572962.
JD299023 - Sequence 280047 from Patent EP1572962.
JD565934 - Sequence 546958 from Patent EP1572962.
JD297358 - Sequence 278382 from Patent EP1572962.
JD039946 - Sequence 20970 from Patent EP1572962.
JD537793 - Sequence 518817 from Patent EP1572962.
JD423085 - Sequence 404109 from Patent EP1572962.
JD242307 - Sequence 223331 from Patent EP1572962.
JD566066 - Sequence 547090 from Patent EP1572962.
JD362515 - Sequence 343539 from Patent EP1572962.
AK022821 - Homo sapiens cDNA FLJ12759 fis, clone NT2RP2001347.
JD490598 - Sequence 471622 from Patent EP1572962.
JD355125 - Sequence 336149 from Patent EP1572962.
JD483548 - Sequence 464572 from Patent EP1572962.
JD150006 - Sequence 131030 from Patent EP1572962.
JD360284 - Sequence 341308 from Patent EP1572962.
JD513872 - Sequence 494896 from Patent EP1572962.
JD255408 - Sequence 236432 from Patent EP1572962.
JD489989 - Sequence 471013 from Patent EP1572962.
JD344802 - Sequence 325826 from Patent EP1572962.
JD374669 - Sequence 355693 from Patent EP1572962.
JD225251 - Sequence 206275 from Patent EP1572962.
JD133465 - Sequence 114489 from Patent EP1572962.
JD255953 - Sequence 236977 from Patent EP1572962.
JD489003 - Sequence 470027 from Patent EP1572962.
JD409252 - Sequence 390276 from Patent EP1572962.
JD352775 - Sequence 333799 from Patent EP1572962.
JD288193 - Sequence 269217 from Patent EP1572962.
JD499997 - Sequence 481021 from Patent EP1572962.
JD348117 - Sequence 329141 from Patent EP1572962.
JD147931 - Sequence 128955 from Patent EP1572962.
JD224844 - Sequence 205868 from Patent EP1572962.
JD155726 - Sequence 136750 from Patent EP1572962.
JD438350 - Sequence 419374 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q7L190 (Reactome details) participates in the following event(s):

R-HSA-2892247 POU5F1 (OCT4), SOX2, NANOG activate genes related to proliferation
R-HSA-452723 Transcriptional regulation of pluripotent stem cells
R-HSA-1266738 Developmental Biology

-  Other Names for This Gene
  Alternate Gene Symbols: A8K4M7, DPPA4_HUMAN, ENST00000335658.1, ENST00000335658.2, ENST00000335658.3, ENST00000335658.4, ENST00000335658.5, ENST00000335658.6, NM_018189, Q7L190, Q9H9N5, Q9NVI6, uc317uif.1, uc317uif.2
UCSC ID: ENST00000335658.7_10
RefSeq Accession: NM_018189.4
Protein: Q7L190 (aka DPPA4_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.